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NA-MIC / ProjectWeek

Website for NA-MIC Project Weeks
https://projectweek.na-mic.org
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Project: Tutorials on working with DICOM annotations in pathology WSI #879

Closed DanielaSchacherer closed 9 months ago

DanielaSchacherer commented 9 months ago

Draft Status

Draft - team will hold off on page creation

Category

Segmentation / Classification / Landmarking

Presenter Location

In-person

Key Investigators

Project Description

This project aims to create tutorials on how to work with DICOM annotations in pathology whole-slide images (WSIs). We will focus on region annotations stored as DICOM Structured Reports (SR) for a dataset of Rhabdomyosarcoma, which was recently ingested into the Imaging Data Commons (IDC). If time permits we will continue working on nuclei annotations stored as DICOM Microscopy Bulk Simple Annotations (MBSA). This work was started in the last project week in Montreal, but hindered by technical issues (see here).

Objective

  1. Objective A: Have a Colaboratory notebook ready that explains work with DICOM SR and uses the annotations for some exemplary use case.
  2. Objective B (optional): Have a Colaboratory notebook ready that exemplifies work with DICOM MBSA.

Approach and Plan

  1. Set-up Google Healthcare DICOM store holding the available DICOM SR annotations.
  2. to be defined

Progress and Next Steps

  1. Describe specific steps you have actually done.

Illustrations

No response

Background and References

No response

DanielaSchacherer commented 9 months ago

Project can be submitted. :)

github-actions[bot] commented 9 months ago

Project Page Pull Request Creation

:white_check_mark: COMPLETED: See https://github.com/NA-MIC/ProjectWeek/pull/936